Variant report

Variant	rs16841836
Chromosome Location	chr3:99647614-99647615
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:99638906..99644679-chr3:99646570..99651799,7	K562	blood:
2	chr3:99639208..99643794-chr3:99646040..99649673,4	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs12330310	1.00[AFR][1000 genomes]
rs13315221	1.00[AFR][1000 genomes]
rs13323384	1.00[AFR][1000 genomes]
rs13327351	0.83[AFR][1000 genomes]
rs13353487	1.00[AFR][1000 genomes]
rs16841800	1.00[AFR][1000 genomes]
rs16841824	1.00[AFR][1000 genomes]
rs16841828	0.83[AFR][1000 genomes]
rs16846956	0.83[AFR][1000 genomes]
rs28368726	1.00[AFR][1000 genomes]
rs28411225	0.83[AFR][1000 genomes]
rs28463921	1.00[AFR][1000 genomes]
rs28508384	1.00[AFR][1000 genomes]
rs28728176	0.83[AFR][1000 genomes]
rs28816814	1.00[AFR][1000 genomes]
rs9809706	1.00[AFR][1000 genomes]
rs9810553	1.00[AFR][1000 genomes]
rs9816232	1.00[AFR][1000 genomes]
rs9820799	1.00[AFR][1000 genomes]
rs9824229	1.00[AFR][1000 genomes]
rs9825382	1.00[AFR][1000 genomes]
rs9825938	1.00[AFR][1000 genomes]
rs9828782	1.00[AFR][1000 genomes]
rs9830038	0.83[AFR][1000 genomes]
rs9831706	0.83[AFR][1000 genomes]
rs9833005	0.83[AFR][1000 genomes]
rs9835048	1.00[AFR][1000 genomes]
rs9837028	1.00[AFR][1000 genomes]
rs9837204	1.00[AFR][1000 genomes]
rs9837555	1.00[AFR][1000 genomes]
rs9841053	1.00[AFR][1000 genomes]
rs9841758	1.00[AFR][1000 genomes]
rs9843919	1.00[AFR][1000 genomes]
rs9844578	1.00[AFR][1000 genomes]
rs9844595	1.00[AFR][1000 genomes]
rs9849336	1.00[AFR][1000 genomes]
rs9849373	1.00[AFR][1000 genomes]
rs9851406	1.00[AFR][1000 genomes]
rs9851985	0.83[AFR][1000 genomes]
rs9852857	1.00[AFR][1000 genomes]
rs9860986	1.00[AFR][1000 genomes]
rs9862370	1.00[AFR][1000 genomes]
rs9868303	1.00[AFR][1000 genomes]
rs9870153	0.83[AFR][1000 genomes]
rs9871500	1.00[AFR][1000 genomes]
rs9875301	1.00[AFR][1000 genomes]
rs9883235	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99604600-99648200	Weak transcription	Primary T cells from cord blood	blood
2	chr3:99640000-99648400	Weak transcription	HSMMtube	muscle
3	chr3:99640200-99648400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:99640200-99648400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:99640400-99648400	Weak transcription	Gastric	stomach
6	chr3:99640400-99648600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:99640400-99656000	Weak transcription	GM12878-XiMat	blood
8	chr3:99640400-99656600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:99640400-99656800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr3:99641000-99648200	Weak transcription	Psoas Muscle	Psoas
11	chr3:99641200-99648400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:99641400-99654200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:99642200-99654000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr3:99644000-99649800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:99644400-99648400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:99644400-99648400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:99644800-99648000	Weak transcription	Left Ventricle	heart
18	chr3:99644800-99648000	Weak transcription	Right Ventricle	heart
19	chr3:99644800-99648200	Weak transcription	Brain Anterior Caudate	brain
20	chr3:99644800-99648400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:99644800-99648400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr3:99644800-99648400	Weak transcription	Brain Hippocampus Middle	brain
23	chr3:99644800-99648400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:99644800-99648400	Weak transcription	Brain Substantia Nigra	brain
25	chr3:99644800-99648400	Weak transcription	A549	lung
26	chr3:99644800-99648600	Weak transcription	Lung	lung
27	chr3:99644800-99648800	Weak transcription	Brain Germinal Matrix	brain
28	chr3:99644800-99649600	Weak transcription	Pancreas	Pancrea
29	chr3:99644800-99653800	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr3:99644800-99663200	Weak transcription	Esophagus	oesophagus
31	chr3:99645000-99648000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr3:99645000-99648400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:99645000-99648400	Weak transcription	HSMM	muscle
34	chr3:99645200-99648200	Weak transcription	HMEC	breast
35	chr3:99645200-99648200	Weak transcription	Osteobl	bone
36	chr3:99645200-99648400	Weak transcription	Aorta	Aorta
37	chr3:99645200-99648400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr3:99645200-99648400	Weak transcription	Fetal Lung	lung
39	chr3:99645200-99648400	Weak transcription	NH-A	brain
40	chr3:99645200-99648600	Weak transcription	Fetal Intestine Small	intestine
41	chr3:99645200-99653800	Weak transcription	NHLF	lung
42	chr3:99645200-99654200	Weak transcription	Small Intestine	intestine
43	chr3:99645200-99656800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr3:99645400-99648400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr3:99645400-99648400	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr3:99645400-99648400	Weak transcription	Brain Angular Gyrus	brain
47	chr3:99645400-99648400	Weak transcription	HepG2	liver
48	chr3:99645400-99653800	Weak transcription	NHDF-Ad	bronchial
49	chr3:99646000-99653400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:99646000-99656400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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